Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,405,969	C→T	V225I (GTT→ATT)	lrhA ←	DNA‑binding transcriptional dual regulator LrhA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,405,969	0	C	T	96.0%	75.0 / NA	25	V225I (GTT→ATT)	lrhA	DNA‑binding transcriptional dual regulator LrhA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base T (15/9);  minor base A (1/0);  total (16/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AACAATGAATCATCCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAGGTTCAATGCCTTAAACGCTGAAGGACGATGGGTGGTTACCATCAAATCCACTTC  >  NC_000913/2405725‑2406200                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                         aacaaTGAATCATCCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCCCTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCCAGACCGGCTTTCCCTGCCCCACGAATGGCCgg                                                                                                                                                                                                                                    >  2:238611/1‑251 (MQ=255) aacaaTGAATCATCCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGCCCGGGCTCCACATCTCCACCGGCCTTGCCGTCACGCCAAGACCGGCTTTAACAGCCGCACGAATGGCCgg                                                                                                                                                                                                                                    >  1:141904/1‑251 (MQ=255)    aaTGAATCATCCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGGCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGa                                                                                                                                                                                                                                   >  1:78574/1‑249 (MQ=255)           catcCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAg                                                                                                                                                                                                                          <  2:3821/251‑1 (MQ=255)                                                     tATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCCCTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCAGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCCCGAAAGGCCGGAAACGTCGAGGCGCAAAAAGCCAGTCGCCATGGAATAATC‑GCTTTATTAAGc                                                                                                                                                                               >  1:10332/1‑251 (MQ=255)                                                     tATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAg                                                                                                                                                                                <  1:185854/250‑1 (MQ=255)                                                                                        gCCAGCTCATTATTACTGGACGGATCATAGCACCGCAAATATTCGGTATCAGGTAGCGGCGGTAAACCATCTACTCCACTCCGCACACGCCGGTCCGGGCTCATCATCTCAACCCGCCTTGCCGTCACGCCCAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGGATA‑TCTGCTTTATTAAACGTCGCCCGCACCCTATCGCGAAACGGGCTAgggtc                                                                                                                                            >  1:116187/1‑248 (MQ=255)                                                                                          cAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGatcat                                                                                                                                          <  1:112908/251‑1 (MQ=255)                                                                                             cTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATcc                                                                                                                                        >  1:12759/1‑250 (MQ=255)                                                                                                           aCGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAACCATCTACTCCACTCAGCACACGCAGGGCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGGGGCGACATAAGCCAGTCGCCCTGGAATA‑TCTGCTTTATTAAACGTCGCCAGCACCAAATCGCGAAACGGGCTAGGATCATCCCGCCATACAAAAggg                                                                                                                         >  2:199738/1‑251 (MQ=255)                                                                                                             ggATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGGCAGCCCTCTACTCCCCTCAGCACACCCAGATCCGGGCTCCTCATTTCAACCGGCCCTGCCGACCCCCCCACACCGGCTTTCCCTGCCGCCCGAATGGCCCGAAGCGTCGAGGCGACATAAGCCAGTCGCCCTGGGATA‑TCTGCTTTTTTAAGAGTCGCCCGCACCCTATCGCGAAACGGGCCAGGGTCATCCAACAATACAAGAGGGAt                                                                                                                       >  1:166143/1‑251 (MQ=255)                                                                                                                 cATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGACCCGGCTCATCATCTCCACCGGCCCTGCCGTCCCGCCAAGACCGGCGTTCACTGCCGCACGAATAGGCGGAAGCGTCGAAGCGACATAAGCCAGTCGCCACGGAATA‑TCTGATTTATTAAGCGGCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCCAAACAAGAGGGATccgc                                                                                                                   >  1:278398/1‑248 (MQ=255)                                                                                                                 cATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGAACACCATCTACTCCACTCAGCACACGCCGATACGGGCTCATCAACTCAACCCGCCTTGCCGTCCCGCCAAGACCGGCTTTCCCAGCACCACGAATAGCCGGAAGCGTCGAGGCGACATAAGCCAGACGCCATGGAATC‑TCTGCTTTATTAAGCGTCACCAGCACCATATCGAGAAACGGGCTAGGAACAACCAACCAAACAAGAGGGATCGGc                                                                                                                   >  1:278403/1‑251 (MQ=255)                                                                                                                                                           cATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAgtgt                                                                         <  2:270912/251‑1 (MQ=255)                                                                                                                                                                   ccACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCg                                                                  <  1:199738/250‑1 (MQ=255)                                                                                                                                                                     aCTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGCCCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGTGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGTCGAgg                                                               <  1:58665/251‑1 (MQ=255)                                                                                                                                                                        cAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTAc                                                            <  2:12759/251‑1 (MQ=255)                                                                                                                                                                         aGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACg                                                           >  1:188615/1‑251 (MQ=255)                                                                                                                                                                              acGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCCTCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGGACGCAggg                                                      >  1:258255/1‑250 (MQ=255)                                                                                                                                                                                 cAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAgggtc                                                    >  2:254183/1‑247 (MQ=255)                                                                                                                                                                                      ccGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAGGTTCAATGcc                                              <  2:78574/251‑1 (MQ=255)                                                                                                                                                                                       cGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAGGTTCAATGCCt                                             <  1:238611/251‑1 (MQ=255)                                                                                                                                                                                            tcatcaTCTCAACCGGACTTGCCGTAACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGCAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGAAATATGTATTCCGCTGAGCAGTACCAGTGTGTTGGAGGGGTACGCAGGTTCAATGACTTaaa                                         >  2:176114/1‑250 (MQ=255)                                                                                                                                                                                                            ccTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAGGTTCAATGCCTTAAACGCTGAAGGACGATggg                        >  1:133091/1‑251 (MQ=255)                                                                                                                                                                                                                                  gCTTTCACTGCCGCACGAATGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAGGTTCAATGCCTTAAACGCTGAAGGACGATGGGTGGTTACCATCAAATCCACTTc  >  1:258297/1‑251 (MQ=255)                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                         AACAATGAATCATCCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACACGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATA‑TCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGATCGGCTCGCCTTTTTGCAATATGTATTCCGCTGCGCAGTACCAGTGTGTTGGCGAGGTACGCAGGTTCAATGCCTTAAACGCTGAAGGACGATGGGTGGTTACCATCAAATCCACTTC  >  NC_000913/2405725‑2406200

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑